Multimarker sediment eDNA metabarcoding data from Gulf of Pozzuoli, Naples

Multimarker sediment eDNA metabarcoding data was obtained from the most polluted Italian marine site: the Site of National Interest (SIN) of Bagnoli-Coroglio (Gulf of Pozzuoli, Naples).Data derived from unicellular to multicellular eukaryotes contribute to understanding biological changes over the last 200 years.